bioconductor: edgeR | Projects | Ecosyste.ms: Papers

10.3390/genes8100287

The Transcriptomes of Xiphinema index and Longidorus elongatus Suggest Independent Acquisition of Some Plant Parasitism Genes by Horizontal Gene Transfer in Early-Branching Nematodes
Cited by: 18
Author(s): Étienne Danchin, Laetitia Perfus‐Barbeoch, Corinne Rancurel, Peter Thorpe, Martine Da Rocha, Simon Bajew, Roy Neilson, Elena Sokolova Guzeeva, Corinne Da Silva, Julie Guy, Karine Labadie, Daniel Esmenjaud, J. Helder, John T. Jones, Sebastian Eves‐van den Akker
Software Mentions: 1
Published: almost 9 years ago

10.3390/genes8110291

RNA-Seq Analysis of Plant Maturity in Crested Wheatgrass (Agropyron cristatum L.)
Cited by: 6
Author(s): Fangqin Zeng, Bill Biligetu, Bruce Coulman, Michael P. Schellenberg, Yong‐Bi Fu
Software Mentions: 1
Published: almost 9 years ago

10.3390/genes8110317

Sequencing and De Novo Assembly of the Toxicodendron radicans (Poison Ivy) Transcriptome
Cited by: 19
Author(s): Alexandra J. Weisberg, Gunjune Kim, James H. Westwood, John G. Jelesko
Software Mentions: 1
Published: almost 9 years ago

10.3390/genes8110330

The HMGA1 Pseudogene 7 Induces miR-483 and miR-675 Upregulation by Activating Egr1 through a ceRNA Mechanism
Cited by: 21
Author(s): Marco De Martino, Giuseppe Palma, Amalia Azzariti, Claudio Arra, Alfredo Fusco, Francesco Esposito
Software Mentions: 1
Published: almost 9 years ago

10.3390/ijms19030852

Transcriptome Analysis Identifies a 140 kb Region of Chromosome 3B Containing Genes Specific to Fusarium Head Blight Resistance in Wheat
Cited by: 13
Author(s): Xin Li, Shengyi Zhong, Wanquan Chen, Syeda Akash Fatima, Qianglan Huang, Qing Li, Feiquan Tan, Peigao Luo
Software Mentions: 1
Published: over 8 years ago

10.3390/ijms19030910

In-Silico Integration Approach to Identify a Key miRNA Regulating a Gene Network in Aggressive Prostate Cancer
Cited by: 11
Author(s): Claudia Cava, Gloria Bertoli, Antonio Colaprico, Gianluca Bontempi, Giancarlo Mauri, Isabella Castiglioni
Software Mentions: 1
Published: over 8 years ago

10.3390/genes9120639

De Novo Analysis Reveals Transcriptomic Responses in Eriobotrya japonica Fruits during Postharvest Cold Storage
Cited by: 17
Author(s): Shoukai Lin, Ti Wu, Hailan Lin, Yanqing Zhang, Shichang Xu, Jinge Wang, Binghua Wu, Yu Chen, Ling Shen, Dasheng Lin, Xiumei Wang, Xiaoxu Zhao, Jincheng Wu
Software Mentions: 1
Published: over 7 years ago

10.3390/genes10010063

Genomic and Transcriptomic Changes that Mediate Increased Platinum Resistance in Cupriavidus metallidurans
Cited by: 8
Author(s): Muntasir Ali, Ann Provoost, Laurens Maertens, Natalie Leys, Pieter Monsieurs, Daniël Charlier, Rob Van Houdt
Software Mentions: 1
Published: over 7 years ago

10.3390/genes10020129

Transcriptome Analysis of Male and Female Mature Gonads of Silver Sillago (Sillago sihama)
Cited by: 33
Author(s): Changxu Tian, Zhiyuan Li, Zhongdian Dong, Yang Huang, Tao Du, Huapu Chen, Dongneng Jiang, Si‐Ping Deng, Yulei Zhang, Wanida Saetan, Hongjuan Shi, Tian-li Wu, Chunhua Zhu, Guangli Li
Software Mentions: 1
Published: over 7 years ago

10.3390/ijms19061810

Differential Expression and Pathway Analysis in Drug-Resistant Triple-Negative Breast Cancer Cell Lines Using RNASeq Analysis
Cited by: 22
Author(s): Safa Shaheen, Febin Fawaz, Shaheen Shah, Dietrich Büsselberg
Software Mentions: 1
Published: about 8 years ago

10.3390/genes10040266

An Integrated Analysis of Cashmere Fineness lncRNAs in Cashmere Goats
Cited by: 23
Author(s): Yawen Zheng, Sheng D. Sheng, Tai Y. Hui, Yue Chang, Jia Sun, Dan Guo, Su L. Guo, Bo J. Li, Hui Xue, Ze Y. Wang, Wen Bai
Software Mentions: 1
Published: over 7 years ago

10.3390/genes10040271

Fluorescent Light Incites a Conserved Immune and Inflammatory Genetic Response within Vertebrate Organs (Danio Rerio, Oryzias Latipes and Mus Musculus)
Cited by: 3
Author(s): Mikki Boswell, Yuan Lu, William Boswell, Markita Savage, Kim Hildreth, Raquel Y. Salinas, Christi A. Walter, Ronald B. Walter
Software Mentions: 1
Published: over 7 years ago

10.3390/genes10040263

Analysis of DNA Methylation Patterns Associated with In Vitro Propagated Globe Artichoke Plants Using an EpiRADseq-Based Approach
Cited by: 6
Author(s): Elisa Cerruti, Cinzia Comino, Alberto Acquadro, G. Marconi, A. M. Repetto, A. B. Pisanu, R. Pilia, Emidio Albertini, Ezio Portis
Software Mentions: 1
Published: over 7 years ago

10.3390/ijms19061594

Candidate Genes for Yellow Leaf Color in Common Wheat (Triticum aestivum L.) and Major Related Metabolic Pathways according to Transcriptome Profiling
Cited by: 58
Author(s): Hui-Yu Wu, Narong Shi, Xuyao An, Liu Cong, Hongfei Fu, Lanqing Cao, Yi Feng, Dianjun Sun, Lingli Zhang
Software Mentions: 1
Published: over 8 years ago

10.3390/genes10070517

Transcriptome Profiling of Primary Skin Fibroblasts Reveal Distinct Molecular Features Between PLOD1- and FKBP14-Kyphoscoliotic Ehlers–Danlos Syndrome
Cited by: 13
Author(s): Pei Jin Lim, Uschi Lindert, Lennart Opitz, Ingrid Haußer, Marianne Rohrbach, Cecilia Giunta
Software Mentions: 1
Published: about 7 years ago

10.1186/s12863-016-0439-5

C14orf132 gene is possibly related to extremely low birth weight
Cited by: 3
Author(s): Airi Tiirats, Triin Viltrop, Margit Nõukas, Ene Reimann, Andres Salumets, Sulev Kõks
Software Mentions: 1
Published: almost 10 years ago

10.3390/genes10080591

Joint RNA-Seq and miRNA Profiling Analyses to Reveal Molecular Mechanisms in Regulating Thickness of Pod Canopy in Brassica napus
Cited by: 11
Author(s): Zhiyou Chen, Qiang Huo, Hong Yang, Hongju Jian, Cunmin Qu, Kun Lu, Jiana Li
Software Mentions: 1
Published: about 7 years ago

10.3390/genes10090662

Comparative Transcriptome Analysis of Gene Expression Patterns in Tomato Under Dynamic Light Conditions
Cited by: 9
Author(s): Jian Ding, Jihe Zhao, Tonghua Pan, Linjie Xi, Jing Zhang, Zhirong Zou
Software Mentions: 1
Published: about 7 years ago

10.3390/genes10090718

Allele-Specific Expression of CD4+ T Cells in Response to Marek’s Disease Virus Infection
Cited by: 3
Author(s): Hao Bai, Yanghua He, Yi Ding, José A. Carrillo, Ramesh K. Selvaraj, Huanmin Zhang, Jilan Chen, Jiuzhou Song
Software Mentions: 1
Published: almost 7 years ago

10.3390/genes10090690

Wood Transcriptome Profiling Identifies Critical Pathway Genes of Secondary Wall Biosynthesis and Novel Regulators for Vascular Cambium Development in Populus
Cited by: 21
Author(s): Min-Ha Kim, Jin Seong Cho, Hyung‐Woo Jeon, Kanidta Sangsawang, Donghwan Shim, Young‐Im Choi, Eung‐Jun Park, Hyoshin Lee, Jae‐Heung Ko
Software Mentions: 1
Published: almost 7 years ago

10.3390/ijms19061626

Oxaloacetate Ameliorates Chemical Liver Injury via Oxidative Stress Reduction and Enhancement of Bioenergetic Fluxes
Cited by: 19
Author(s): Ye Kuang, Xing Han, Mu Xu, Yue Wang, Yuxiang Zhao, Qing Yang
Software Mentions: 1
Published: over 8 years ago

10.3390/genes10100743

Physiological and Transcriptomic Analysis Reveals Distorted Ion Homeostasis and Responses in the Freshwater Plant Spirodela polyrhiza L. under Salt Stress
Cited by: 9
Author(s): Lili Fu, Zehong Ding, Xiaoyan Sun, Jiaming Zhang
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12863-020-00862-2

RNA-seq reveals downregulated osteochondral genes potentially related to tibia bacterial chondronecrosis with osteomyelitis in broilers
Cited by: 3
Author(s): Hellenn Cardoso Oliveira, A. M. G. Ibelli, Simone Eliza Facioni Guimarães, Maurício Egídio Cantão, J. de O. Peixoto, Luiz Lehmann Coutinho, Mônica Corrêa Ledur
Software Mentions: 1
Published: over 6 years ago

10.3390/genes10110835

Transcriptomic Revelation of Phenolic Compounds Involved in Aluminum Toxicity Responses in Roots of Cunninghamia lanceolata (Lamb.) Hook
Cited by: 10
Author(s): Zhihui Ma, Lei Qin
Software Mentions: 1
Published: almost 7 years ago

10.3390/genes11010022

Expression of Heat Shock Proteins in Thermally Challenged Pacific Abalone Haliotis discus hannai
Cited by: 16
Author(s): Dongsoo Kyeong, Ju‐Yeon Kim, Younhee Shin, Sathiyamoorthy Subramaniyam, Byeong-Chul Kang, Eun-Ha Shin, Eun Hee Park, Eun Soo Noh, Young‐Ok Kim, Jung Youn Park, Bo‐Hye Nam
Software Mentions: 1
Published: over 6 years ago

10.3390/genes11020179

Variability in Gene Expression is Associated with Incomplete Penetrance in Inherited Eye Disorders
Cited by: 14
Author(s): David J. Green, Shalaw R. Sallah, Jamie M Ellingford, Simon C. Lovell, Panagiotis I. Sergouniotis
Software Mentions: 1
Published: over 6 years ago

10.3390/genes11020144

De Novo Transcriptome Identifies Olfactory Genes in Diachasmimorpha longicaudata (Ashmead)
Cited by: 5
Author(s): Liang-De Tang, Jimin Liu, Lihui Liu, Yonghao Yu, Hang Zhao, Wen Lu
Software Mentions: 1
Published: over 6 years ago

10.3390/genes11020183

Comparative Transcriptome Analysis Identifying the Different Molecular Genetic Markers Related to Production Performance and Meat Quality in Longissimus Dorsi Tissues of MG × STH and STH Sheep
Cited by: 19
Author(s): Cheng ShuRu, Xueying Wang, Quanwei Zhang, Yuqin He, Xia Zhang, Lei Yang, Jing Shi
Software Mentions: 1
Published: over 6 years ago

10.3390/genes11020203

Identification and Characterization of Extracellular Vesicles and Its DNA Cargo Secreted During Murine Embryo Development
Cited by: 20
Author(s): Blanca Simon, David Bolumar, Alicia Amadoz, Jorge Jiménez-Almazán, Diana Valbuena, Felipe Vilella, Inmaculada Moreno
Software Mentions: 1
Published: over 6 years ago

10.3390/genes11030320

Genome-Wide Analysis and Function Prediction of Long Noncoding RNAs in Sheep Pituitary Gland Associated with Sexual Maturation
Cited by: 13
Author(s): Hua Yang, Junwu Ma, Zhen Wang, Xiaolei Yao, Zhao Jie, Xinyue Zhao, Feng Wang, Yanli Zhang
Software Mentions: 1
Published: over 6 years ago

10.3390/genes11030336

Prolactin-Responsive Circular RNA circHIPK3 Promotes Proliferation of Mammary Epithelial Cells from Dairy Cow
Cited by: 12
Author(s): Jia Liu, MoLan Zhang, Dewei Li, Menglu Li, Linghao Kong, MengWen Cao, Yanhong Wang, Chengchuang Song, Xingtang Fang, Hong Chen, Hui Xu, Chunlei Zhang
Software Mentions: 1
Published: over 6 years ago

10.1186/s12863-018-0700-1

Comparative transcriptome analysis of two selenium-accumulating genotypes of Aegilops tauschii Coss. in response to selenium
Cited by: 8
Author(s): Lijun Wu, Tao Liu, Yongsheng Xu, Wenjie Chen, Baolong Liu, Lianquan Zhang, Dengcai Liu, Huaigang Zhang, Bo Zhang
Software Mentions: 1
Published: over 7 years ago

10.3390/genes11040397

Transcriptomic and ChIP-seq Integrative Analysis Reveals Important Roles of Epigenetically Regulated lncRNAs in Placental Development in Meishan Pigs
Cited by: 6
Author(s): Dadong Deng, Xihong Tan, Kun Han, Ruimin Ren, Jianhua Cao, Mei Yu
Software Mentions: 1
Published: over 6 years ago

10.3390/ijms19082417

In Vivo Analysis of miR-34a Regulated Glucose Metabolism Related Genes in Megalobrama amblycephala
Cited by: 6
Author(s): Linghong Miao, Yan Lin, Xin Huang, Wenjing Pan, Qunlan Zhou, Bo Liu, Mingchun Ren, Xianping Ge, Liangkun Pan
Software Mentions: 1
Published: about 8 years ago

10.3390/genes11050509

Transcriptome Analysis Reveals Important Candidate Genes Related to Nutrient Reservoir, Carbohydrate Metabolism, and Defence Proteins during Grain Development of Hexaploid Bread Wheat and Its Diploid Progenitors
Cited by: 11
Author(s): Megha Kaushik, Shubham Rai, Sureshkumar Venkadesan, S. K. Sinha, Sumedha Mohan, Pranab Kumar Mandal
Software Mentions: 1
Published: over 6 years ago

10.3390/genes11050478

Molecular Mechanism Underlying Mechanical Wounding-Induced Flavonoid Accumulation in Dalbergia odorifera T. Chen, an Endangered Tree That Produces Chinese Rosewood
Cited by: 16
Author(s): Ying Sun, Mei Gao, Seogchan Kang, Changmei Yang, Hua Meng, Yun Yang, Xiaoyan Zhao, Zhi‐Hui Gao, Yunyuan Xu, Yongfeng Jin, Xiaohong Zhao, Zheng Zhang, Jianping Han
Software Mentions: 1
Published: over 6 years ago

10.3390/genes11060592

Transcriptome Analysis of Zebrafish Olfactory Epithelium Reveal Sexual Differences in Odorant Detection
Cited by: 8
Author(s): Ying Wang, Haifeng Jiang, Liandong Yang
Software Mentions: 1
Published: over 6 years ago

10.3390/genes11070733

Transcriptomic Analysis of Gill and Kidney from Asian Seabass (Lates calcarifer) Acclimated to Different Salinities Reveals Pathways Involved with Euryhalinity
Cited by: 17
Author(s): Shubha Vij, K. Purushothaman, Prakki Sai Rama Sridatta, Dean R. Jerry
Software Mentions: 1
Published: about 6 years ago

10.3390/ijms19082364

Transcriptome Analysis of JA Signal Transduction, Transcription Factors, and Monoterpene Biosynthesis Pathway in Response to Methyl Jasmonate Elicitation in Mentha canadensis L.
Cited by: 21
Author(s): Xiwu Qi, Hailing Fang, Yan Xu, Dongbei Xu, Li Li, Chengyuan Liang, Hongfei Lü, Weilin Li, Chen Yin, Zequn Chen
Software Mentions: 1
Published: about 8 years ago

10.3390/ijms19092837

Guanidinoacetic Acid Regulates Myogenic Differentiation and Muscle Growth Through miR-133a-3p and miR-1a-3p Co-mediated Akt/mTOR/S6K Signaling Pathway
Cited by: 35
Author(s): Yujie Wang, Jideng Ma, Wanling Qiu, Jinwei Zhang, Siyuan Feng, Xiankun Zhou, Xun Wang, Long Jin, Keren Long, Lingyan Liu, Weihang Xiao, Qianzi Tang, Li Zhu, Yanzhi Jiang, Xuewei Li, Mingzhou Li
Software Mentions: 1
Published: almost 8 years ago

10.1186/s12862-019-1362-y

Effects of adult temperature on gene expression in a butterfly: identifying pathways associated with thermal acclimation
Cited by: 6
Author(s): Kristin Franke, Isabell Karl, Tonatiuh Peña Centeno, Barbara Feldmeyer, Christian Lassek, Vicencio Oostra, Katharina Riedel, Mario Stanke, Christopher W. Wheat, Klaus Fischer
Software Mentions: 1
Published: over 7 years ago

10.3390/ijms19102858

Identification of Endogenous Control miRNAs for RT-qPCR in T-Cell Acute Lymphoblastic Leukemia
Cited by: 30
Author(s): Monika Drobna, Bronisława Szarzyńska‐Zawadzka, Patrycja Daca-Roszak, Maria Kosmalska, Roman Jaksik, Michał Witt, Małgorzata Dawidowska
Software Mentions: 1
Published: almost 8 years ago

10.1186/1471-2148-13-165

Horizontally transferred genes in the genome of Pacific white shrimp, Litopenaeus vannamei
Cited by: 14
Author(s): Jianbo Yuan, Xiaojun Zhang, Cheng-Zhang Liu, Jiankai Wei, Fuhua Li, Jianhai Xiang
Software Mentions: 1
Published: about 13 years ago

10.1186/s12862-015-0322-4

Genetic variation of transgenerational plasticity of offspring germination in response to salinity stress and the seed transcriptome of Medicago truncatula
Cited by: 52
Author(s): Wendy Vu, Peter L. Chang, Ken S. Moriuchi, Maren Friesen
Software Mentions: 1
Published: over 11 years ago

10.1186/s12861-017-0147-z

Transcriptome profiling reveals expression signatures of cranial neural crest cells arising from different axial levels
Cited by: 23
Author(s): Rachael Lumb, Sam Buckberry, Genevieve A. Secker, David Lawrence, Quenten Schwarz
Software Mentions: 1
Published: over 9 years ago

10.1186/s12861-015-0054-0

Development of the follicular basement membrane during human gametogenesis and early folliculogenesis
Cited by: 66
Author(s): A. Marijne Heeren, Liesbeth van Iperen, Daniëlle B Klootwijk, Ana de Melo Bernardo, Matthias S Roost, Maria M Gomes Fernandes, L. A. Louwe, Carina G. J. M. Hilders, Frans M. Helmerhorst, Lucette Aj van der Westerlaken, Susana M. Chuva de Sousa Lopes
Software Mentions: 1
Published: over 11 years ago

10.1186/s12872-020-01629-4

Electronic cigarette extract induced toxic effect in iPS-derived cardiomyocytes
Cited by: 7
Author(s): Hesham Basma, Swetha Tatineni, Kajari Dhar, Fang Qiu, Stephen I. Rennard, Brian D. Lowes
Software Mentions: 1
Published: about 6 years ago

10.1186/s12885-017-3907-z

Gene-expression signature regulated by the KEAP1-NRF2-CUL3 axis is associated with a poor prognosis in head and neck squamous cell cancer
Cited by: 75
Author(s): Akhileshwar Namani, Md. Matiur Rahaman, Ming Chen, Xiuwen Tang
Software Mentions: 1
Published: over 8 years ago

10.1186/s12885-019-6032-3

Survival analysis of immune-related lncRNA in low-grade glioma
Cited by: 46
Author(s): Xiaozhi Li, Yutong Meng
Software Mentions: 1
Published: about 7 years ago

10.3390/ijms19103083

Comprehensive Analysis of MicroRNA–Messenger RNA from White Yak Testis Reveals the Differentially Expressed Molecules Involved in Development and Reproduction
Cited by: 18
Author(s): Quanwei Zhang, Qi Wang, Yong Zhang, Cheng ShuRu, Junjie Hu, Youji Ma, Xingxu Zhao
Software Mentions: 1
Published: almost 8 years ago

10.1186/s12885-021-08193-w

High HSPA8 expression predicts adverse outcomes of acute myeloid leukemia
Cited by: 18
Author(s): Jun Li, Zheng Ge
Software Mentions: 1
Published: over 5 years ago

10.1186/s12885-015-1586-1

Somatic drivers of B-ALL in a model of ETV6-RUNX1; Pax5 +/− leukemia
Cited by: 20
Author(s): Louise van der Weyden, George Giotopoulos, Kim Wong, Alistair G. Rust, Carla Daniela Robles-Espinoza, Hikari Osaki, Brian J. P. Huntly, David J. Adams
Software Mentions: 1
Published: about 11 years ago

10.1186/s12885-020-07399-8

Prediction of prognostic signatures in triple-negative breast cancer based on the differential expression analysis via NanoString nCounter immune panel
Cited by: 5
Author(s): Gregory B. Lim, Young-Ae Kim, Jihoon Seo, Hee Jin Lee, Gyungyub Gong, Sung Hee Park
Software Mentions: 1
Published: almost 6 years ago

10.1186/s12885-021-08482-4

CD36 promotes vasculogenic mimicry in melanoma by mediating adhesion to the extracellular matrix
Cited by: 11
Author(s): Carmela Martini, Mark O. DeNichilo, Danielle P. King, Michaelia P. Cockshell, Brenton Ebert, Brian Dale, Lisa M. Ebert, Anthony E. Woods, Claudine S. Bonder
Software Mentions: 1
Published: about 5 years ago

10.1186/s12885-021-07995-2

Comprehensive analysis of ceRNA networks reveals prognostic lncRNAs related to immune infiltration in colorectal cancer
Cited by: 25
Author(s): Jingyi Chen, Yuxuan Song, Mei Li, Yu Zhang, Ting-Ru Lin, Jie Sun, Di Wang, Yulan Liu, Junyu Guo, Weidong Yu
Software Mentions: 1
Published: over 5 years ago

10.1093/gbe/evu035

Complete Dosage Compensation and Sex-Biased Gene Expression in the Moth Manduca sexta
Cited by: 51
Author(s): G. Troy Smith, Yun‐Ru Chen, Gary W. Blissard, Adriana D. Briscoe
Software Mentions: 1
Published: over 12 years ago

10.1093/gbe/evv132

Evolutionary Divergence of Gene and Protein Expression in the Brains of Humans and Chimpanzees
Cited by: 40
Author(s): Amy L. Bauernfeind, Erik J. Soderblom, Meredith Turner, M. Arthur Moseley, John J. Ely, Patrick R. Hof, Chet C. Sherwood, Gregory A. Wray, Courtney C. Babbitt
Software Mentions: 1
Published: about 11 years ago

10.3390/ijms19103170

De Novo Transcriptome Sequencing Analysis of Goose (Anser anser) Embryonic Skin and the Identification of Genes Related to Feather Follicle Morphogenesis at Three Stages of Development
Cited by: 15
Author(s): Chang Liu, Cornelius Tlotliso Sello, Yanbo Sun, Yifang Zhou, Hongtao Lu, Yuanyuan Sui, Jingtao Hu, Chi Xu, Yue Sun, Jing Liu, Shengyi Li, Yiming Zhang, Kaiyan Zhang
Software Mentions: 1
Published: almost 8 years ago

10.1093/gbe/evaa206

The Evolution of Phenotypic Plasticity in Response to Temperature Stress
Cited by: 27
Author(s): François Mallard, Viola Nolte, Christian Schlötterer
Software Mentions: 1
Published: almost 6 years ago

10.1093/gbe/evab023

Divergence in Coding Sequence and Expression of Different Functional Categories of Immune Genes between Two Wild Rodent Species
Cited by: 3
Author(s): Xianqiong Zhong, Max Lundberg, Lars Råberg
Software Mentions: 1
Published: over 5 years ago

10.1186/s12885-021-08345-y

Persistent Newcastle disease virus infection in bladder cancer cells is associated with putative pro-survival and anti-viral transcriptomic changes
Cited by: 6
Author(s): Lee-Chin Chan, Jeevanathan Kalyanasundram, Sze-Wei Leong, Mas Jaffri Masarudin, Abhi Veerakumarasivam, Khatijah Yusoff, Soon Choy Chan, Suet Lin Chia
Software Mentions: 1
Published: over 5 years ago

10.1186/s12885-019-5671-8

CRKL regulates alternative splicing of cancer-related genes in cervical cancer samples and HeLa cell
Cited by: 24
Author(s): Qingling Song, Fengtao Yi, Yuhong Zhang, Daniel K. Jun Li, Yaxun Wei, Han Yu, Yi Zhang
Software Mentions: 1
Published: over 7 years ago

10.1186/s13073-018-0548-z

Integrative analysis of DNA methylation and gene expression reveals hepatocellular carcinoma-specific diagnostic biomarkers
Cited by: 76
Author(s): Ju Chien Cheng, Dongkai Wei, Yuan Ji, Lingli Chen, Liguang Yang, Guang Li, Leilei Wu, Ting Hou, Lu Xie, Guohui Ding, Hong Li, Yixue Li
Software Mentions: 1
Published: over 8 years ago

10.3390/ijms19103180

iTRAQ-Based Proteomic Analysis of Ogura-CMS Cabbage and Its Maintainer Line
Cited by: 12
Author(s): Fengqing Han, Xiaoli Zhang, Limei Yang, Mu Zhuang, Yangyong Zhang, Zhansheng Li, Zhiyuan Fang, Honghao Lv
Software Mentions: 1
Published: almost 8 years ago

10.1186/s13073-021-00968-x

Deep learning in cancer diagnosis, prognosis and treatment selection
Cited by: 197
Author(s): Khoa Tran, Olga Kondrashova, Andrew P. Bradley, Elizabeth D. Williams, John V. Pearson, Nicola Waddell
Software Mentions: 1
Published: almost 5 years ago

10.1186/s12885-017-3251-3

Transcriptional changes induced by bevacizumab combination therapy in responding and non-responding recurrent glioblastoma patients
Cited by: 16
Author(s): Thomas Urup, Line Mærsk Staunstrup, Signe Regner Michaelsen, Kristoffer Vitting-Seerup, Marc Bennedbæk, Anders Toft, Lars Rønn Olsen, Lars Jønson, Shohreh Issazadeh‐Navikas, Helle Broholm, Petra Hamerlik, Hans Skovgaard Poulsen, Ulrik Lassen
Software Mentions: 1
Published: over 9 years ago

10.3390/nu12113235

Animal and Cellular Studies Demonstrate Some of the Beneficial Impacts of Herring Milt Hydrolysates on Obesity-Induced Glucose Intolerance and Inflammation
Cited by: 10
Author(s): Rachel Durand, Adia Ouellette, Vanessa P. Houde, Frédéric Guénard, Thibaut Varin, Bruno Marcotte, Geneviève Pilon, Erwann Fraboulet, Marie‐Claude Vohl, André Marette, Laurent Bazinet
Software Mentions: 1
Published: almost 6 years ago

10.1186/2047-217X-3-20

miRNA Temporal Analyzer (mirnaTA): a bioinformatics tool for identifying differentially expressed microRNAs in temporal studies using normal quantile transformation
Cited by: 17
Author(s): Regina Z. Cer, J. Enrique Herrera-Galeano, Joseph J. Anderson, Kimberly A. Bishop‐Lilly, Vishwesh Mokashi
Software Mentions: 1
Published: almost 12 years ago

10.1093/gigascience/gix031

Comparative genomic analysis of SET domain family reveals the origin, expansion, and putative function of the arthropod-specific SmydA genes as histone modifiers in insects
Cited by: 15
Author(s): Feng Jiang, Qing Liu, Yanli Wang, Jie Zhang, Huimin Wang, Tianqi Song, Meiling Yang, Xianhui Wang, Le Kang
Software Mentions: 1
Published: over 9 years ago

10.3390/ijms19113412

Transcriptomic Analysis of Betula halophila in Response to Salt Stress
Cited by: 17
Author(s): Fenjuan Shao, Lisha Zhang, Iain W. Wilson, Deyou Qiu
Software Mentions: 1
Published: almost 8 years ago

10.3390/ijms19123735

Comparative Transcriptome Analysis between a Resistant and a Susceptible Wild Tomato Accession in Response to Phytophthora parasitica
Cited by: 25
Author(s): Zunaira Afzal Naveed, Gul Shad Ali
Software Mentions: 1
Published: almost 8 years ago

10.1093/gigascience/giz157

Genome and population sequencing of a chromosome-level genome assembly of the Chinese tapertail anchovy (Coilia nasus) provides novel insights into migratory adaptation
Cited by: 21
Author(s): Gaosi Xu, Chao Bian, Zhou Nie, Jia Li, Yuyu Wang, Donghui Xu, Xinxin You, Hongbo Liu, Jiancao Gao, Hongxia Li, Kai Liu, Jian Yang, Quanjie Li, Nailin Shao, Yanbing Zhuang, Di‐An Fang, Tao Jiang, Yunyun Lv, Yu Huang, Ruobo Gu, Junmin Xu, Wei Ge, Qiong Shi, Pao Xu
Software Mentions: 1
Published: over 6 years ago

10.1093/gigascience/giaa160

A chromosome-level genome assembly of the oriental river prawn, Macrobrachium nipponense
Cited by: 25
Author(s): Shubo Jin, Chao Bian, Sufei Jiang, Kai Han, Yiwei Xiong, Wenyi Zhang, Chengcheng Shi, Hui Qiao, Zijian Gao, Ruihan Li, Yu Huang, Yongsheng Gong, Xinxin You, Guangyi Fan, Qiong Shi, Hongtuo Fu
Software Mentions: 1
Published: over 5 years ago

10.1080/19490976.2020.1862612

Dietary betaine prevents obesity through gut microbiota-drived microRNA-378a family
Cited by: 42
Author(s): Jing Du, Peiwen Zhang, Jiang Luo, Linyuan Shen, Shunhua Zhang, Hao Gu, Jin He, Linghui Wang, Xue Zhao, Mailing Gan, Yang Liu, Lili Niu, Ye Zhao, Qianzi Tang, Guoqing Tang, Dongmei Jiang, Yanzhi Jiang, Mingzhou Li, Anan Jiang, Long Jin, Jideng Ma, Surong Shuai, Lin Bai, Jinyong Wang, Bo Zeng, De Wu, Xuewei Li, Li Zhu
Software Mentions: 1
Published: over 5 years ago

10.1080/19490976.2021.1887720

Gut microbiota shape the inflammatory response in mice with an epithelial defect
Cited by: 11
Author(s): Ran Wang, Md. Moniruzzaman, Kuan Yau Wong, Percival Wiid, Alexa Harding, Rabina Giri, Wendy Hui Tong, Jacqueline Creagh, Jakob Begun, Michael A. McGuckin, Sumaira Z. Hasnain
Software Mentions: 1
Published: over 5 years ago

10.1186/s13099-020-00390-5

Transcriptome changes and polymyxin resistance of acid-adapted Escherichia coli O157:H7 ATCC 43889
Cited by: 2
Author(s): Daekeun Hwang, Seung Min Kim, Hyun Jung Kim
Software Mentions: 1
Published: almost 6 years ago

10.1002/hed.26089

MicroRNA‐based risk scoring system to identify early‐stage oral squamous cell carcinoma patients at high‐risk for cancer‐specific mortality
Cited by: 23
Author(s): Angela J. Yoon, Shuang Wang, David I. Kutler, Richard D. Carvajal, Elizabeth Philipone, Tian Wang, Dominic LaRoche, Brenda Y. Hernandez, Bradley D. McDowell, Claire Stewart, Fatemeh Momen‐Heravi, Regina M. Santella
Software Mentions: 1
Published: over 6 years ago

10.1016/j.heliyon.2021.e06307

Cellular and molecular profiles of anterior nervous system regeneration in Diopatra claparedii Grube, 1878 (Annelida, Polychaeta)
Cited by: 0
Author(s): Mohd Ulul Ilmie Ahmad Nazri, Mohd Hafizi Mahmud, Basri Saidi, Mohd-Noor Mat-Isa, Zolkapli Ehsak, Bin Haji Ross Othman, Izwandy Idris, Wan Iryani Wan Ismail
Software Mentions: 1
Published: over 5 years ago

10.1186/s41065-020-00122-4

Comparative transcriptome analysis reveals gene expression differences between two peach cultivars under saline-alkaline stress
Cited by: 9
Author(s): Shouqin Sun, Haiyan Song, Jing Li, Dong Chen, Tu MeiYan, Guanghong Jia, Guoqing Yu, Zhiqin Zhou
Software Mentions: 1
Published: over 6 years ago

10.1002/advs.202001334

Human Mesenchymal Stem Cell Derived Exosomes Enhance Cell‐Free Bone Regeneration by Altering Their miRNAs Profiles
Cited by: 120
Author(s): Mengmeng Zhai, Ye Zhu, Mingying Yang, Chuanbin Mao
Software Mentions: 1
Published: about 6 years ago

10.3390/ijms20030539

Global Transcriptional Insights of Pollen-Pistil Interactions Commencing Self-Incompatibility and Fertilization in Tea [Camellia sinensis (L.) O. Kuntze]
Cited by: 29
Author(s): Romit Seth, Abhishek Bhandawat, Rajni Parmar, Pradeep Singh, Sanjay Kumar, Ram Kumar Sharma
Software Mentions: 1
Published: over 7 years ago

10.3390/ijms20040944

Insights into Body Size Evolution: A Comparative Transcriptome Study on Three Species of Asian Sisoridae Catfish
Cited by: 3
Author(s): Weixing Jiang, Yicheng Guo, Kuo-Pin Yang, Qiong Shi, Jing Yang
Software Mentions: 1
Published: over 7 years ago

10.3390/ijms20061411

Map-Based Cloning, Phylogenetic, and Microsynteny Analyses of ZmMs20 Gene Regulating Male Fertility in Maize
Cited by: 22
Author(s): Yan Bo Wang, Dongcheng Liu, Youhui Tian, Wu Shu, Xianghai An, Zhenying Dong, Simiao Zhang, Jianxi Bao, Ziwen Li, Jinping Li, Xiangyuan Wan
Software Mentions: 1
Published: over 7 years ago

10.1038/s41438-018-0054-x

VlbZIP30 of grapevine functions in dehydration tolerance via the abscisic acid core signaling pathway
Cited by: 20
Author(s): Mingxing Tu, Xianhang Wang, Yanxun Zhu, Dejun Wang, Xuechuan Zhang, Ye Cui, Yajuan Li, Min Gao, Zhi Li, Yuejin Wang
Software Mentions: 1
Published: about 8 years ago

10.1038/s41438-020-00372-3

Grapevine VlbZIP30 improves drought resistance by directly activating VvNAC17 and promoting lignin biosynthesis through the regulation of three peroxidase genes
Cited by: 47
Author(s): Mingxing Tu, Xianhang Wang, Wuchen Yin, Wang Ya, Yajuan Li, Guofeng Zhang, Zhi Li, Junyang Song
Software Mentions: 1
Published: about 6 years ago

10.1038/s41438-019-0130-x

MicroRNA396-mediated alteration in plant development and salinity stress response in creeping bentgrass
Cited by: 58
Author(s): Shuangrong Yuan, Junlong Zhao, Zhigang Li, Qian Hu, Nannan Yuan, Man Zhou, Xiao-Xia Xia, Rooksana E. Noorai, Christopher Saski, Shigui Li, Hong Luo
Software Mentions: 1
Published: over 7 years ago

10.1038/hortres.2017.32

A transcriptome analysis of two grapevine populations segregating for tendril phyllotaxy
Cited by: 6
Author(s): Jie Arro, José Cuenca, Yingzhen Yang, Zhenchang Liang, Peter Cousins, Gan-Yuan Zhong
Software Mentions: 1
Published: about 9 years ago

10.3390/ijms20081906

Comparative Transcriptomic Studies on a Cadmium Hyperaccumulator Viola baoshanensis and Its Non-Tolerant Counterpart V. inconspicua
Cited by: 19
Author(s): Haoyue Shu, Jun Zhang, Fuye Liu, Chao Bian, Jie-Liang Liang, Jiaqi Liang, Weihe Liang, Zhiliang Caleb Lin, Wen‐Sheng Shu, Jintian Li, Qiong Shi, Bin Liao
Software Mentions: 1
Published: over 7 years ago

10.1016/j.immuni.2021.03.021

The CD94/NKG2A inhibitory receptor educates uterine NK cells to optimize pregnancy outcomes in humans and mice
Cited by: 39
Author(s): Norman Shreeve, Delphine Depierreux, Dean Hawkes, James A. Traherne, Ulla Sovio, Oisín Huhn, Jyothi Jayaraman, Amir Horowitz, Hormas Ghadially, John R. B. Perry, Ashley Moffett, John G. Sled, Andrew Sharkey, Francesco Colucci
Software Mentions: 1
Published: over 5 years ago

10.1093/jxb/ert428

Global and local perturbation of the tomato microRNA pathway by atrans-activatedDICER-LIKE 1mutant
Cited by: 26
Author(s): Michael Kravchik, Ramanjulu Sunkar, Subha Damodharan, Ran Stav, Matat Zohar, Tal Isaacson, Tzahi Arazi
Software Mentions: 1
Published: over 12 years ago

10.3390/ijms20092349

An Integrated Analysis of the Rice Transcriptome and Metabolome Reveals Differential Regulation of Carbon and Nitrogen Metabolism in Response to Nitrogen Availability
Cited by: 66
Author(s): Xin Wei, Lina Zhang, Wenzhong Zhang, Jiping Gao, Jun Yi, Xiaoxi Zhen, Ziang Li, Zhao Ying, Chengcheng Peng, Chen Zhao
Software Mentions: 1
Published: over 7 years ago

10.1093/jxb/erw131

Up-regulating the abscisic acid inactivation geneZmABA8ox1bcontributes to seed germination heterosis by promoting cell expansion
Cited by: 16
Author(s): Yangyang Li, Cheng Wang, Xinye Liu, Jian Song, Hongjian Li, Zhipeng Sui, Ming Zhang, S. S. Fang, Jinfang Chu, Mingming Xin, Chaojie Xie, Yirong Zhang, Qixin Sun, Zhongfu Ni
Software Mentions: 1
Published: over 10 years ago

10.1093/jxb/erw338

Genome-scale mRNA and small RNA transcriptomic insights into initiation of citrus apomixis
Cited by: 34
Author(s): Long Jiang, Liduan Zheng, Xiaomeng Wu, Yan-Ni Fang, Hui-Hui Jia, Zongzhou Xie, Xiuxin Deng, Wen‐Wu Guo
Software Mentions: 1
Published: almost 10 years ago

10.1093/jxb/erx057

Non-coding RNA may be associated with cytoplasmic male sterility in Silene vulgaris
Cited by: 22
Author(s): James D. Stone, Pavla Koloušková, Daniel B. Sloan, Helena Štorchová
Software Mentions: 1
Published: over 9 years ago

10.1093/jxb/erw391

Photosynthesis in C3–C4intermediateMoricandiaspecies
Cited by: 52
Author(s): Urte Schlüter, Andrea Bräutigam, Udo Gowik, Michael Melzer, Pascal‐Antoine Christin, Samantha Kurz, Tabea Mettler‐Altmann, Andreas P.M. Weber
Software Mentions: 1
Published: almost 10 years ago

10.1093/jxb/erw343

C3cotyledons are followed by C4leaves: intra-individual transcriptome analysis ofSalsola soda(Chenopodiaceae)
Cited by: 19
Author(s): Maximilian Lauterbach, Kumari Billakurthi, Gudrun Kadereit, Martha Ludwig, Peter Westhoff, Udo Gowik
Software Mentions: 1
Published: almost 10 years ago

10.3390/ijms20092360

OsbZIP81, A Homologue of Arabidopsis VIP1, May Positively Regulate JA Levels by Directly Targetting the Genes in JA Signaling and Metabolism Pathway in Rice
Cited by: 22
Author(s): Defang Liu, Shaopeng Shi, Hao Zhang, Wentao Xiong, Meizhong Luo
Software Mentions: 1
Published: over 7 years ago

10.1093/jxb/ery077

GCN5 contributes to stem cuticular wax biosynthesis by histone acetylation of CER3 in Arabidopsis
Cited by: 34
Author(s): Tianya Wang, Jiewen Xing, Xinye Liu, Yingyin Yao, Zhaorong Hu, Huiru Peng, Mingming Xin, Dao‐Xiu Zhou, Yirong Zhang, Zhongfu Ni
Software Mentions: 1
Published: over 8 years ago

10.1093/jxb/ery189

Differential response to heat stress in outer and inner onion bulb scales
Cited by: 13
Author(s): Ortal Galsurker, Adi Doron‐Faigenboim, Paula Teper‐Bamnolker, Avinoam Daus, Amnon Lers, Dani Eshel
Software Mentions: 1
Published: over 8 years ago

10.1093/jxb/erz533

ATBS1-INTERACTING FACTOR 2 negatively regulates dark- and brassinosteroid-induced leaf senescence through interactions with INDUCER OF CBF EXPRESSION 1
Cited by: 19
Author(s): Yonggyun Kim, Park Min Su, Shin Dm, Giang Pham, Yong-Jin Jeong, Kim Sh
Software Mentions: 1
Published: almost 7 years ago

Projects: bioconductor: edgeR

Science Score: 100/100

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Papers Mentioning edgeR 6,568